Paul Tupper - People.stat.sfu.ca - Simon Fraser University

Paul Tupper
pft3@sfu.ca
Associate Professor, Canada Research Chair, Tier 2
Department of Mathematics
Simon Fraser University, 8888 University Drive
Burnaby, BC, V5A 1S6 Canada
(778)-782-8638.
RESEARCH INTERESTS
Molecular dynamics, phase field models, phylogenetics, statistical mechanics, stochastic differential
equations, mathematical modelling in linguistics. Numerical simulation in all these topics.
EDUCATION
• Ph.D., Scientific Computing-Computational Mathematics. (April 2002).
Stanford University.
Advisor: Prof. Andrew Stuart
• B.Sc. (Honours), Mathematics (June 1997).
Simon Fraser University, Canada.
POSITIONS HELD
• Associate Professor, Department of Mathematics, Simon Fraser University (2008–Present).
• Assistant Professor, Department of Mathematics and Statistics, McGill University (2004–2008).
• Postdoctoral Fellow, Centre for the Physics of Materials, McGill University (2002–2004).
• Graduate Student / Research Fellow / Teaching Fellow, Stanford University (1997–2002).
PUBLICATIONS
Submitted
• David Bryant, Paul Tupper
“Hyperconvexity and Tight Span Theory for Diversities.”
• John Alderete, Paul Tupper, Stefan A. Frisch
“Integrating connectionist and symbolic approaches to phonotactics: Arabic root cooccurrence
restrictions revisited.”
Refereed
• P. F. Tupper,
“The Relation between Approximation in Distribution and Shadowing in Molecular Dynamics.”
SIAM Journal on Applications of Dynamical Systems, June 2009.
• B. Charbonneau, Y. Svyrydov, and P. F. Tupper,
“Weak Convergence in the Prokhorov Metric of Methods for Stochastic Differential Equations.”
IMA Journal of Numerical Analysis, February 2009.
• P. F. Tupper and M. Grant,
“Phase Field Crystals as a Coarse-Graining in Time of Molecular Dynamics.”
Europhysics Letters, 81 No. 4 (February 2008) 40007 (4pp).
• P. F. Tupper,
“A Conjecture about Molecular Dynamics.”
Mathematics and Computation, a Contemporary View: The Abel Symposium 2006. Chapter
5, November 2008.
• D. Cottrell and P. F. Tupper,
“Energy Drift in Molecular Dynamics Simulations.”
BIT Numerical Mathematics, Vol. 47, No. 3, September 2007, 507–523.
• P. F. Tupper,
“Computing Statistics for Hamiltonian Systems: A Case Study.”
JCAM, Vol. 205, Issue 2, August 2007, (826–834).

• T. Lepage, S. Lawi, P. Tupper, D. Bryant,
“Continuous and Tractable models for the Variation of Evolutionary Rates.”
Mathematical Biosciences, Vol. 199, Issue 2, February 2006, (216-233).
• P. F. Tupper,
“Ergodicity and the Numerical Simulation of Hamiltonian Systems.”
SIAM Journal on Applied Dynamical Systems, Vol. 4, 2005, (563–587).
• P. F. Tupper,
“A Test Problem for Molecular Dynamics Integrators.”
IMA Journal of Numerical Analysis, Vol. 25, 2005, (286–309).
• R. Kupferman, A. M. Stuart, J. R. Terry, P. F. Tupper,
“Long Term Behaviour of Large Mechanical Systems with Random Initial Data.”
Stochastics and Dynamics, Vol. 2, No. 4, 2002, (533–562).
• P. F. Tupper,
“Adaptive Model Reduction for Chemical Kinetics.”
BIT Numerical Mathematics, Vol. 42, No. 2, 2002, (447–465).
• C. Iliadis, A. Champagne, J. José, S. Starrfield, P. Tupper,
“Thermonuclear Reaction Rate Variations for Nova Nucleosynthesis”
Astrophys. J. Supp. 142, 2002, (105–137).
• C. Moisan, P. Tupper, J. G. Rogers, and J. K. de Jong,
“A Monte Carlo Study of the Acceptance to Scattered Events in a Depth Encoding PET Camera.”
IEEE Trans. Nucl. Sci., Vol. 43, No. 3, 1996, (1974-1980).
Non-refereed
• R. D. Skeel and P. F. Tupper, editors,
“Mathematical Issues in Molecular Dynamics.”
Report on Banff International Research Station Workshop of the same name, Summer 2005.
• P. F. Tupper,
“Topics in the Numerical Solution of ODEs: Molecular Dynamics and Chemical Kinetics.”
Ph.D. thesis, submitted March 2002.
• A. Beltukov, J. Choi, L. Hoffnung, N. Nigam, D. Sterling, P. Tupper,
“Problems in ultra-high-precision GPS position estimation.”
(IMA Preprint Series, 1998).
AWARDS
• Leslie Fox Prize 2005, one of two first place prizes. Awarded to best submitted paper in
Numerical Analysis by someone under the age of 31.
• SIAM 100-Dollar, 100-Digit Challenge, with M. Gander, F. Kwok, S. Loisel, N. Nigam. One
of 20 winning teams in the world.
• Postdoctoral Fellow, National Sciences and Engineering Research Council of Canada, 2002–
2004.
• Thomas V. Jones Stanford Graduate Fellowship, Stanford University, 1997-2001. Full tuition
and stipend awarded for academic excellence.
• Dean’s Convocation Medal, Simon Fraser University, 1997. Awarded to best undergraduate
student graduating in faculty of science.
• Shrum Scholarship, Simon Fraser University, 1993. $20,000 awarded for academic excellence
to student entering first year.
• International Physics Olympiad, Bronze Medal, Finland, 1992. Special mention for original
solution to problem in molecular dynamics.

INVITED PRESENTATIONS
Only selected talks shown
• “The Relation Between Shadowing and Weak Convergence in Molecular Dynamics”
Sandia National Labs. New Mexico.
June 26th 2007.
• “The Relation Between Shadowing and Weak Convergence in Molecular Dynamics”
SIAM Conference on Applications of Dynamical Systems. Snowbird, Utah.
May 29th, 2007.
• “Introduction to Stochastic Spatial Models of Biochemical Systems”
CAIMS 2007. Banff, Alberta.
May 21st 2007.
• “Using Phase Field Crystals for Long-time Simulation in Materials Science.”
Biophysics/soft matter seminar. University of Western Ontario, London, Ontario.
January 24th 2007.
• “The trouble with molecular dynamics.”
CRM-ISM Colloquium. Montréal, Québec.
November 17th 2006.
• “A difficult open conjecture in the analysis of molecular dynamics.”
The Abel Symposium 2006. ˚Alesund, Norway.
May 27th 2006.
• “Using Phase Field Crystals for Long-time Simulation in Materials Science.”
Nanoscale Computational Modeling Series. Purdue University, Indiana.
March 29th 2006.
• “Ergodicity and the numerical simulation of Hamiltonian systems.”
Leslie Fox Prize Competition. Dundee, Scotland.
June 27th 2005.
• “Ergodicity and the numerical simulation of Hamiltonian systems.”
Mathematical Issues in Molecular Dynamics. Banff International Research Station.
June 8th 2005.
• “Using classical density functional theory for long-time simulation in materials science”
Materials Seminar. Institute for Mathematics and Its Applications, Minneapolis, Minnesota.
February 23, 2005.
• “Ergodicity and Numerical Simulation”
Young Mathematicians’ Conference in PDE and Dynamical Systems. Toronto, Canada.
February 1, 2004.
• “Models of Heat Baths, Long Term Statistics, and Numerical Simulation”
LMS Durham Symposium on Markov Chains. Durham, United Kingdom.
August 2, 2003.
• “Energy-Conservation, Volume-Conservation, and Ergodicity for Molecular Dynamics Simulations”
SciCADE, Trondheim, Norway.
July 1, 2003.

GRANTS HELD
• Canada Research Chair, $100,000 per annum for 5 years.
• NSERC Discovery Grant, $22,000 per annum for 5 years.
• NSERC Discovery Grant, $12,000 per annum for 5 years.
• NSERC Research Tools and Infrastructure Grant with Worsley, Goren, Vandal, Darmon,
Labute, Nigam. $23,333 for one year. 2006-2007.
• McGill Seminar Grant with Keith Worsley and Tony Humphries, $1,500 for one year. 2005-
2006.
EVENT ORGANISATION
• Chaos and Ergodicity of Realistic Hamiltonian Systems, Workshop at CRM, December 11-
14th, 2007. Jointly with Henk Broer. 4 day workshop.
• Stochastic Spatial Models of Biochemical Systems, Minisymposium at CAIMS 2007, May 20-
24th, 2007. Jointly with Peter Swain.
• Montreal Scientific Computing Days, CRM, Feb 25-26th, 2006. With Anne Bourlioux and
Thomas Wihler. 2-day program with short courses and student lectures. Approximately 70
registrants.
• Mathematical Issues in Molecular Dynamics, Banff International Research Station, June 4-9th,
2005. Jointly with Bob Skeel. 5-day workshop with 40 participants.
• Extracting Macroscopic Information from Molecular Dynamics, CRM, April 7-9th, 2005. Jointly
with Andrew Stuart. 3 day workshop with 12 speakers.